I read the comic.
* Phaedus was surveyed five years ago by a Starfleet vessel, approximately 2253 or 2254
* The Phaedans are using older model Starfleet tricorders with universal translators and are wielding phaser rifles
* Captain Robert April commanded what he described as "...a ship called Enterprise..."
* Captain Robert April is wearing a variant of the Starfleet uniform

I don't have an interpretation of these facts, but they lead somewhere.

The world (Phaedus) being different from what we know is the name of the world at the beginning of the film, (I forget, had shots) may mean this is the beginning of a 'string of prime directive violations' which April, (& Cohorts) could be behind all of them. It's beginning to gel!